2MME

Hybrid structure of the Shigella flexneri MxiH Type three secretion system needle

Experimental Data Snapshot

  • Method: SOLID-STATE NMR
  • Conformers Calculated: 5000 
  • Conformers Submitted: 10 
  • Selection Criteria: target function 
  • Method: ELECTRON MICROSCOPY
  • Resolution: 7.7 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history. 

Literature

High-resolution structure of the Shigella type-III secretion needle by solid-state NMR and cryo-electron microscopy.

Demers, J.P., Habenstein, B., Loquet, A., Kumar Vasa, S., Giller, K., Becker, S., Baker, D., Lange, A., Sgourakis, N.G.

(2014) Nat Commun 5: 4976-4976

  • DOI: 10.1038/ncomms5976

  • PubMed Abstract: 

    • We introduce a general hybrid approach for determining the structures of supramolecular assemblies. Cryo-electron microscopy (cryo-EM) data define the overall envelope of the assembly and rigid-body orientation of the subunits while solid-state nucle ...

    We introduce a general hybrid approach for determining the structures of supramolecular assemblies. Cryo-electron microscopy (cryo-EM) data define the overall envelope of the assembly and rigid-body orientation of the subunits while solid-state nuclear magnetic resonance (ssNMR) chemical shifts and distance constraints define the local secondary structure, protein fold and inter-subunit interactions. Finally, Rosetta structure calculations provide a general framework to integrate the different sources of structural information. Combining a 7.7-Å cryo-EM density map and 996 ssNMR distance constraints, the structure of the type-III secretion system needle of Shigella flexneri is determined to a precision of 0.4 Å. The calculated structures are cross-validated using an independent data set of 691 ssNMR constraints and scanning transmission electron microscopy measurements. The hybrid model resolves the conformation of the non-conserved N terminus, which occupies a protrusion in the cryo-EM density, and reveals conserved pore residues forming a continuous pattern of electrostatic interactions, thereby suggesting a mechanism for effector protein translocation.

    Related Citations: 
    • Structure of a type III secretion needle at 7- angstrom resolution provides insights into its assembly and signaling mechanisms.
      Fujii, T.,Cheung, M.,Blanco, A.,Kato, T.,Blocker, A.J.,Namba, K.
      (2012) Proc.Natl.Acad.Sci.USA 109: 4461

    Organizational Affiliation: 

    1] Department of NMR-based Structural Biology, Max Planck Institute for Biophysical Chemistry, 37077 Göttingen, Germany [2] Department of Molecular Biophysics, Leibniz-Institut für Molekulare Pharmakologie (FMP), 13125 Berlin, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
MxiH
A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, a, b, c
85Shigella flexneriMutation(s): 0 
Gene Names: mxiH
Find proteins for Q6XVY0 (Shigella flexneri)
Go to UniProtKB:  Q6XVY0
Experimental Data & Validation

Experimental Data

  • Method: SOLID-STATE NMR
  • Conformers Calculated: 5000 
  • Conformers Submitted: 10 
  • Selection Criteria: target function 
  • Method: ELECTRON MICROSCOPY
  • Resolution: 7.7 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-10-08
    Type: Initial release